Department of Genetics

Epigenomics Core

Mission

To facilitate the research programs of Einstein investigators by providing shared resources to study epigenetic modifications across the entire genome, including DNA methylation, histone modification and DNA-protein interactions.

For MPS services, sequence reads will be processed and aligned against a reference genome and processed using the appropriate data analysis pipeline for that assay. We deliver summary and quality metric data along with the sequencing data.

For microarray services, hybridized arrays will be scanned and converted into pair files after aligning with the design files using NimbleScan 2.5. Further analysis will be performed to visualize the data. We deliver summary and preliminary analysis reports and statistics along with the pair files.

Assistance with retrieving data, instructions as to how to use the tools and more extensive data analysis on a fee-for-service basis are provided by the Computational Genomics Core (Link to the Computational Genomics Core).

Analytical Resources:
Analytical resources are available to Einstein researchers at the Analytical Tools website maintained by the Computational Genomics Core. This site includes Roche-Nimblegen software: NimbleScan 2.5 and SignalMap 1.9, CLC Genomics Workbench, Ingenuity Pathway Analysis, R/BioConductor and more.

Fees

Services

Einstein

External

Illumina GA IIx§

Single end/sample/lane

$2,000

$2,500

Paired end/sample/lane

$3,700

$4,600

Multiplexing /sample/lane

$210

$300

Single read Library Preparation*

600

$750

Paired End Library Preparation*

$800

$1,000

FLX Titanium Run

Full run

$12,000

$15,000

Regions-2/sample/region

$6,000

$7,500

Regions-4/sample/region

$3,200

$3,600

Regions-8/sample/region

$1,800

$2,250

Regions-16/sample/region

$1,100

$1,400

Library Preparation Charges *

$550

$800

§These prices are for read length of 35-75 bp.

*Library charges included in sequencing costs; if additional lanes run on an existing library subtract library charge from the sequencing cost for cost of additional lane.

NimbleGen Array Platform

per region*1

385K

2 color/sample fluorescence

$650

4 x 72K

2 color/sample fluorescence

$250

HD2 (2.1 million features)

2 color/sample fluorescence

$950

3 x 720K

2 color/sample fluorescence

$450

12 x 135K

2 color/sample fluorescence

$200

Stripping of an array*2

$50

*1 These prices are for Einstein Researchers only.

*2 The charge for subsequent hybridization of the stripped array will not include the array cost.